miRNA display CGI


Results 1 - 20 of 33 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23459 5' -56.6 NC_005259.1 + 2068 0.68 0.579505
Target:  5'- -aCGGCGGuucaAUUGGGCGGgccugcucgauUUCAUCGGc -3'
miRNA:   3'- uaGCCGCUg---UAGCCCGCU-----------GAGUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 4116 0.66 0.727341
Target:  5'- cUCGGCGGCcUCGacguGGCcaaGAC-CGUCGGc -3'
miRNA:   3'- uAGCCGCUGuAGC----CCG---CUGaGUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 10344 0.74 0.283299
Target:  5'- cUCGGCGGCAgCGGGCucgaCAUCGGg -3'
miRNA:   3'- uAGCCGCUGUaGCCCGcugaGUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 10431 0.68 0.579505
Target:  5'- cUCGGCGAgcucgaCAUCGaGUGGCUCGaCGGc -3'
miRNA:   3'- uAGCCGCU------GUAGCcCGCUGAGUaGCC- -5'
23459 5' -56.6 NC_005259.1 + 10757 0.75 0.269735
Target:  5'- --gGGCGAUcaucauGUCGGGCGGgUCAUCGa -3'
miRNA:   3'- uagCCGCUG------UAGCCCGCUgAGUAGCc -5'
23459 5' -56.6 NC_005259.1 + 10932 0.73 0.350983
Target:  5'- cUCGGCGAacUCGGuGuCGAcCUCGUCGGu -3'
miRNA:   3'- uAGCCGCUguAGCC-C-GCU-GAGUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 11779 0.72 0.384548
Target:  5'- -aCGGCGAgggagucccacaCAUCGGGCGcgacccgcuugaGCUCGUCGc -3'
miRNA:   3'- uaGCCGCU------------GUAGCCCGC------------UGAGUAGCc -5'
23459 5' -56.6 NC_005259.1 + 13784 0.67 0.685687
Target:  5'- -aCGGCGACGagcagUGGuGCGACaUCAcCGGc -3'
miRNA:   3'- uaGCCGCUGUa----GCC-CGCUG-AGUaGCC- -5'
23459 5' -56.6 NC_005259.1 + 17601 0.66 0.717035
Target:  5'- cUCGGCgcgauGACGUgGGGCGGCgaggaCGGu -3'
miRNA:   3'- uAGCCG-----CUGUAgCCCGCUGagua-GCC- -5'
23459 5' -56.6 NC_005259.1 + 18705 0.69 0.558494
Target:  5'- -aCGGCGGucugaccucgauCAUCGGGCcGCccggCAUCGGu -3'
miRNA:   3'- uaGCCGCU------------GUAGCCCGcUGa---GUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 24600 0.66 0.747675
Target:  5'- -cCGGUGACgGUUGGGaaCGuaugcccaaGCUCAUCGGc -3'
miRNA:   3'- uaGCCGCUG-UAGCCC--GC---------UGAGUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 24724 0.66 0.709774
Target:  5'- cUCGGCGAUcacgauugaugcgguGUgGGGUGccgaggcGCUCAUCGa -3'
miRNA:   3'- uAGCCGCUG---------------UAgCCCGC-------UGAGUAGCc -5'
23459 5' -56.6 NC_005259.1 + 27071 0.72 0.37596
Target:  5'- -aCGGCGACAUCGccgacauucugcGGCGGCUgcCAUgCGGu -3'
miRNA:   3'- uaGCCGCUGUAGC------------CCGCUGA--GUA-GCC- -5'
23459 5' -56.6 NC_005259.1 + 27390 0.66 0.706651
Target:  5'- -cCGGCGGCgguGUCGGcaGCGGCggCAgcUCGGu -3'
miRNA:   3'- uaGCCGCUG---UAGCC--CGCUGa-GU--AGCC- -5'
23459 5' -56.6 NC_005259.1 + 32141 0.68 0.632608
Target:  5'- -gCGGUGAUGUCGGGCuuauagaGCUUGUCGu -3'
miRNA:   3'- uaGCCGCUGUAGCCCGc------UGAGUAGCc -5'
23459 5' -56.6 NC_005259.1 + 34028 0.69 0.527408
Target:  5'- cUCGGCGGCgugcGUCGGcGCGuuCUUGUUGGc -3'
miRNA:   3'- uAGCCGCUG----UAGCC-CGCu-GAGUAGCC- -5'
23459 5' -56.6 NC_005259.1 + 40110 0.69 0.521265
Target:  5'- aGUCGGCGAaugcgcucguggaauUggCGGGCGAgCUCgccGUCGGu -3'
miRNA:   3'- -UAGCCGCU---------------GuaGCCCGCU-GAG---UAGCC- -5'
23459 5' -56.6 NC_005259.1 + 44263 0.7 0.467384
Target:  5'- aGUCGGCGACAUCGaGGcCGAacgCcUUGGc -3'
miRNA:   3'- -UAGCCGCUGUAGC-CC-GCUga-GuAGCC- -5'
23459 5' -56.6 NC_005259.1 + 49631 0.66 0.717035
Target:  5'- cAUCGGCGGCAgccgCGucGGCGAUgg--CGGc -3'
miRNA:   3'- -UAGCCGCUGUa---GC--CCGCUGaguaGCC- -5'
23459 5' -56.6 NC_005259.1 + 50680 0.66 0.717035
Target:  5'- cGUCGGUGcCGaCGaGGCGcuGCUCGUCGu -3'
miRNA:   3'- -UAGCCGCuGUaGC-CCGC--UGAGUAGCc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.